the fbi, cia, pentagon, the white house, and congress. >> i am puzzled by much of what has occurred in the fbi investigation. >> reporter: the former cia director admitted to an affair with broadwell which came to light when the fbi investigated what one u.s. official has described as a jealous e-mail broadwell sent to kelley. now general allen is under investigation for allegedly sending to kelley e-mail messages one defense official described as flirtation. authorities are scouring 20,000 to 30,000 pages of documents. >> it really makes you wonder how he would have even the time to do it and the motivation to do that from afar. >> reporter: the news about allen which the national security council spokesman says president obama learned about the same day petraeus resigned has put amen's nomination to be nato supreme allied commander on hold. allen denies any wrongdoing and remains on duty in afghanistan. >> president has great confidence in the military. great confidence in his commanders.